Andrew J. Blumberg

Professor of mathematics, University of Texas at Austin
(blumberg(at)math.utexas.edu)

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  • Algebraic topology
  • Computational topology and genomics
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Computational topology and genomics research

I am interested in topological data analysis (TDA) and more broadly the use of topology and geometry to analyze data. I work on

• Probabilistic inference in topological data analysis,
• the foundations of persistent algebraic topology,
• applications of the space of phylogenetic trees to genomics, and
• topological data analysis in cancer genomics, as part of the Center for topology of cancer evolution and heterogeneity based at Columbia.

The effect of introgression on the joint distribution of gene tree topologies at two linked loci joint with Miriam Miyagi and John Wakeley.	Preprint, 2020.
Stability of 2-parameter persistent homology joint with Mike Lesnick.	arxiv
The multiparameter persistence image for topological machine learning joint with Mathieu Carriere. To appear, Proceedings of NeurIPS, 2020.	Published version
MREC: a fast and versatile framework for aligning and matching point clouds with applications to single cell molecular data joint with Mathieu Carriere, Michael A. Mandell, Raul Rabadan, and Soledad Villar	arxiv
Topological data analysis for genomics and evolution joint with Raul Rabadan. Cambridge University Press, 2020.	Amazon page
Genomic architecture and introgression shape a butterfly radiation joint with Nathaniel B. Edelman, Paul Frandsen, Miriam Miyagi, Bernardo J. Clavijo, John Davey, Rebecca Dikow, Gonzalo Garcia Accinelli, Steven Van Belleghem, Nick J. Patterson, Daniel E. Neafsey, Richard J Challis, Sujai Kumar, Gilson Moreira, Camilo Salazar, Mathieu Chouteau, Brian Counterman, Riccardo Papa, Mark Blaxter, Robert D. Reed, Kanchon Dasmahapatra, Marcus Kronforst, Mathieu Joron, Chris D. Jiggins, W. Owen McMillan, Federica Di-Palma, John Wakeley, David Jaffe, and James Mallet Science 366 (6465), 2019.	biorxiv published version
Quasi-universality in single-cell sequencing data joint with Luis Aparicio, Mykola Bordyuh, and Raul Rabadan Patterns (Cell Press) 1 (3), 2020.	biorxiv published version
Fast estimation of recombination rates using topological data analysis joint with Devon Humphreys, Melissa McGuirl, and Miriam Miyagi. Genetics 211 (4), 2019.	biorxiv published version
Testing to distinguish measures on metric spaces joint with Prithwish Bhaumik and Stephen G. Walker.	arxiv
Geometry and topology of genomic data joint with Raul Rabadan. Chapter 66 in Handbook of Discrete and Computational Geometry (Third edition). J.E. Goodman, J. O'Rourke, and C.D. Toth, editors.	published version
Universality of the homotopy interleaving distance joint with Mike Lesnick.	arxiv
Spatiotemporal genomic architecture informs precision oncology in glioblastoma joint with Jin-Ku Lee, Jiguang Wang, Jason K Sa, Erik Ladewig, Hae-Ock Lee, In-Hee Lee, Hyun Ju Kang, Daniel S Rosenbloom, Pablo G Camara, Zhaoqi Liu, Patrick Van Nieuwenhuizen, Sang Won Jung, Seung Won Choi, Junhyung Kim, Andrew Chen, Kyu-Tae Kim, Sang Shin, Yun Jee Seo, Jin-Mi Oh, Yong Jae Shin, Chul- Kee Park, Doo-Sik Kong, Ho Jun Seol, Jung-Il Lee, Antonio Iavarone, Woong-Yang Park, Raul Rabadan, Do-Hyun Nam. Nature Genetics 49 (2017), 594–599.	published version
A polynomial-time relaxation of the Gromov-Hausdorff distance joint with Soledad Villar, Afonso Bandeira, and Rachel Ward.	arxiv
Clonal evolution of glioblastoma under therapy joint with Jiguang Wang, Emanuela Cazzato, Erik Ladewig, Veronique Frattini, Daniel I. S. Rosenbloom, Sakellarios Zairis, Francesco Abate, Zhaoqi Liu, Oliver Elliott, Yong-Jae Shin, Jin-Ku Lee, In-Hee Lee, Woong-Yang Park, Marica Eoli, Anna Lasorella, Do-Hyun Nam, Gaetano Finocchiaro, Antonio Iavarone, and Raul Rabadan. Nature Genetics 48 (2016), 768-776.	published version
Genomic data analysis in tree spaces joint with Sakellarios Zairis, Hossein Khiabanian, and Raul Rabadan.	arxiv
Moduli spaces of phylogenetic trees describing tumor evolutionary patterns. joint with Sakellarios Zairis, Hossein Khiabanian, and Raul Rabadan. Springer Lecture Notes in Computer Science 8609 (2014).	published version
Persistent homology for metric measure spaces, and robust statistics for hypothesis testing and confidence intervals joint with Itamar Gal, Mike Mandell, and Matt Pancia. Foundations of Computational Mathematics 14 (2014), 745-789.	published version
Quantitative homotopy theory in topological data analysis joint with Mike Mandell. Foundations of Computational Mathematics 13 (2013), 885-911.	published version

© 2011 Andrew J. Blumberg